[English] 日本語
Yorodumi- EMDB-22977: SARS-CoV-2 Assembly and Egress Pathway Revealed by Correlative Mu... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-22977 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | SARS-CoV-2 Assembly and Egress Pathway Revealed by Correlative Multi-modal 1 Multi-scale Cryo-imaging | |||||||||
Map data | Subtomogram average of spikes on released viruses | |||||||||
Sample |
| |||||||||
Biological species | Severe acute respiratory syndrome coronavirus 2 | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 8.7 Å | |||||||||
Authors | Sun DP / Zhang PJ | |||||||||
Citation | Journal: To Be Published Title: SARS-CoV-2 Assembly and Egress Pathway Revealed by Correlative Multi-modal 1 Multi-scale Cryo-imaging Authors: Zhang PJ / Sun DP | |||||||||
History |
|
-Structure visualization
Movie |
Movie viewer |
---|---|
Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_22977.map.gz | 751 KB | EMDB map data format | |
---|---|---|---|---|
Header (meta data) | emd-22977-v30.xml emd-22977.xml | 7 KB 7 KB | Display Display | EMDB header |
Images | emd_22977.png | 42.5 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-22977 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-22977 | HTTPS FTP |
-Validation report
Summary document | emd_22977_validation.pdf.gz | 297.8 KB | Display | EMDB validaton report |
---|---|---|---|---|
Full document | emd_22977_full_validation.pdf.gz | 297.4 KB | Display | |
Data in XML | emd_22977_validation.xml.gz | 5.5 KB | Display | |
Data in CIF | emd_22977_validation.cif.gz | 6.3 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-22977 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-22977 | HTTPS FTP |
-Related structure data
Related structure data | C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
---|
-Map
File | Download / File: emd_22977.map.gz / Format: CCP4 / Size: 7.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | Subtomogram average of spikes on released viruses | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 3.26 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
|
-Supplemental data
-Sample components
-Entire : SARS-CoV-2 spikes
Entire | Name: SARS-CoV-2 spikes |
---|---|
Components |
|
-Supramolecule #1: SARS-CoV-2 spikes
Supramolecule | Name: SARS-CoV-2 spikes / type: complex / ID: 1 / Parent: 0 |
---|---|
Source (natural) | Organism: Severe acute respiratory syndrome coronavirus 2 |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
Processing | subtomogram averaging |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
---|---|
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
---|---|
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 3.1 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Applied symmetry - Point group: C3 (3 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 8.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number subtomograms used: 7090 |
---|---|
Extraction | Number tomograms: 51 / Number images used: 7090 |
Final angle assignment | Type: PROJECTION MATCHING |